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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtataaccagtttttgcggtggtcctgttctgcttatactattgtggggttaattcattgattgttttcagGAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTTCAAAATTGTACAATACATTCAGTATGGGATGAACTAAAGGTTTCTTGTA

Basic information

species Oryza sativa
transcript LOC_Os03g31550.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g31550.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G050984_T01 (Zea mays), 3'ss of exon 4
gtaagtataaccagtttttgcgg-tggtcctgttctgcttatactattgtggggttaattcatt-gattgttttcagGAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTTCAAAATTGTACAATACATTCAGTATGGGATGAACTAAAGGTTTCTTGTA
||||| |||| |      || |  |||  |||  ||  | | ||||||||| | ||||   ||| || | ||  ||||||||||||||||| | ||| |||  |||||| ||||||||||||||||| || ||||||||||||  |||||| |||||||||||||| |  |||||||
gtaagcataaacttgcgctgtgaatggcactggccttgtcaaactattgtgagattaacctatttgagtcttgacagGAACTTAATTTTCACAATGATGGAGTTGTGCTACATTATGGCCAGTTGCTCCAGAATTGTACAATAAGTTCAGTTTGGGATGAACTAAAAGCATCTTGTA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|58695695|gb|CK084382.1|CK084382
EST:     AGCACATGGCTACAGAACTCAAGCGAAGTCCTGAGGAGATAAAA                         GAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTT
genomic: AGCACATGGCTACAGAACTCAAGCGAAGTCCTGAGGAGATAAAAgtaagtataa ... ttgttttcagGAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTT
EST: gi|86903777|gb|CI302423.1|CI302423
EST:     GGATTCAGCACATGGCTACAGAACTCAAGCGAAGTCCTGAGGAGATNAAA                         GAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTT
genomic: GGATTCAGCACATGGCTACAGAACTCAAGCGAAGTCCTGAGGAGATAAAAgtaagtataa ... ttgttttcagGAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTT
EST: gi|88411025|gb|CI606244.1|CI606244
EST:     GGATTCAGCACATGGCTACAGAACTCAAGCGAAGTCCTGAGGAGATAAAA                         GAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTT
genomic: GGATTCAGCACATGGCTACAGAACTCAAGCGAAGTCCTGAGGAGATAAAAgtaagtataa ... ttgttttcagGAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTT
EST: gi|58683895|gb|CK072582.1|CK072582
EST:     GGATTCAGCACATGGCTACAGAACTCAAGCGAAGTCCTGAGGAGATAAAA                         GAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTT
genomic: GGATTCAGCACATGGCTACAGAACTCAAGCGAAGTCCTGAGGAGATAAAAgtaagtataa ... ttgttttcagGAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggtggtcctgttctgcttatactattgtggggttaattcattgattgttttcagGAACTTAATTTTCAAAGTGAGGGATCTGTGCTTCATTATGGCCAGTTGCTTCAAAATTGTACAATACATTCAGTATGGGATGAACTAAAGGTTTCTTGTA
                                       cattgat  putative branch site (score: 4)
                                             ttgttttc  CT-rich tract
                                 ttaattcattgatt  TA-rich tract